Introduction

The CCN clearinghouse provides a synthesized and curated set of coastal carbon data that promotes the sharing of open data, novel analyses, and collaboration opportunities. The synthesis is created by curating and merging publicly available data through an automated script. This report documents the success or failure of the automated synthesis process, documents changes, conducts QA/QC tests, and provides visualizations and summaries of data within the clearinghouse.

Report date: 2025/01/08-13:56

Version: 1.5.0

Synthesis status: Successful

Contact: Jaxine Wolfe ()

Database Overview

Currently, this synthesis contains 541 studies with soil carbon associated observations across 4078 sites and 16007 cores from around the world. Observations represent a 64 year timespan, from 1960 to 2024.

QA/QC

Test Results Overview

Relational Tables

Cases where a core ID is present in the core-level table but not the depthseries.

Cases where a core ID is present in the depthseries table but not the core-level table.

Uncontrolled Attributes

The studies with uncontrolled attributes in essential tables are the following:

Cifuentes_et_al_2023_Panama, Cifuentes_et_al_2024_Nicoya, Morrissette_et_al_2023

This table provides a more detailed breakdown of these attributes and the values associated with them:

Uncontrolled Variables

Numeric Attributes

Summary Statistics:

Bibliography

## [1] "The following studies do not have citation information present."
## [1] "NRCS"

Stats and Visualization

Habitats

The following table shows which cores are currently not assigned any habitat:

Geography

The following table shows which cores are currently not assigned any country. This may be because the latitude and longitude are undefined.

Depthseries

Depth Interval Checks

The following studies have cores with a max depth of NA or 0: Tully_et_al_2024, Poppe_et_al_2024, Nahlik_and_Fennessy_2016, Mbense_et_al_2016, Langston_et_al_2022, Agawin_et_al_1996, De_Iongh_et_al_1995, Holmer_et_al_2007, Townsend_and_Fonseca_1998, Van_Engeland_2010

Instances of multiple observations for the same interval within a unique core (and unique method ID) were found in the following 44 studies:

Boyd_et_al_2017, Buffington_et_al_2020, Callaway_et_al_2019, CRMS_Database, Drexler_et_al_2009, Drexler_et_al_2013, Everhart_et_al_2020, Fourqurean_and_Kendrick_unpublished, Geldenhyus_et_al_2016, Gerlach_et_al_2017, Gonneea_et_al_2004, Howard_and_Fourqurean_2020, Human_et_al_2022, Johnson_et_al_2020, Johnson_et_al_2024_eelgrass, Kemp_et_al_2020, Kemp_et_al_2023, Kemp_et_al_2024, Kumar_et_al_2020, Langston_et_al_2022, MacKenzie_et_al_2021, Marot_et_al_2020, Mbense_et_al_2016, Messerschmidt_and_Kirwan_2020, Nahlik_and_Fennessy_2016, NCSS, Oakes_and_Connolly_2004, Orson_1990, Paula_et_al_2001, Peer_et_al_2018, Quafisi_et_al_2024, Rajkaran_and_Adams_2011, Rigollet_et_al_2004, Schieder_and_Kirwan_2019, Smeaton_et_al_2022b, Smeaton_et_al_2023, Stahl_et_al_2024, StLaurent_et_al_2020, Strand_et_al_2024, Trettin_et_al_2017, Tully_et_al_2024, Van_de_Broek_et_al_2018, Wang_et_al_2023, Watson_and_Byrne_2013

There are 4663 single-interval surface samples (max depth < 20cm) and 179 single-interval subsurface samples. There are also 644 large single-interval samples (ex. one representative (?) sample for 0-100cm depth).

The following 3 studies had at least one depth interval where the depth max was less than the depth min: Bezuidenhout_et_al_2011, DelVecchia_et_al_2014, Thom_1992

Numeric Data Distributions

Relationship between organic matter (LOI) and carbon content

Change Log

There are 728 new cores in this synthesis compared to the previous version. These come from 6 studies, 5 habitats, and 4 countries.

Habitats with New Data

New species: Atriplex prostrata, Plectritis congesta, Ribes, Physocarpus capitatus, Lysichiton americanum, Holcus lanatus, Carex utriculata, None, Atriplex, Mora oleifera

Distribution of max sampling depths in the new data:

Countries with New Data

Table of New Cores

Miscellaneous

The following files were found in the derivative folders. They either do not match the approved filename structure for csvs or are another filetype

Unknown CSVs

##  [1] "data/primary_studies/Adotey_et_al_2024/derivative/Adotey_et_al_2024_allometric_eq.csv"          
##  [2] "data/primary_studies/Adotey_et_al_2024/derivative/Adotey_et_al_2024_plant.csv"                  
##  [3] "data/primary_studies/Adotey_et_al_2024/derivative/Adotey_et_al_2024_plot_summary.csv"           
##  [4] "data/primary_studies/CIFOR/derivative_ALT/cifor_alt_allometric_eq.csv"                          
##  [5] "data/primary_studies/CIFOR/derivative_ALT/cifor_alt_plant_plot_summary.csv"                     
##  [6] "data/primary_studies/CIFOR/derivative_ALT/cifor_alt_plant.csv"                                  
##  [7] "data/primary_studies/CIFOR/derivative_ALT/cifor_alt_plot_summary.csv"                           
##  [8] "data/primary_studies/CIFOR/derivative_SWAMP/cifor_swamp_allometric_eq.csv"                      
##  [9] "data/primary_studies/Craft_2024/derivative/Craft_2024_associated_publication.csv"               
## [10] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_allometric_eq.csv"          
## [11] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_plant.csv"                  
## [12] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_plot_summary.csv"           
## [13] "data/primary_studies/Fourqurean_2012/derivative/Fourqurean_2012_biomass.csv"                    
## [14] "data/primary_studies/Gillen_et_al_2018/derivative/Gillen_et_al_2018_plant_plot_detail.csv"      
## [15] "data/primary_studies/Gillen_et_al_2018/derivative/Gillen_et_al_2018_plot_summary.csv"           
## [16] "data/primary_studies/Johnson_et_al_2024_seagrass/derivative/Johnson_et_al_2024_eelgrass.csv"    
## [17] "data/primary_studies/Morgan_et_al_2024/derivative/morgan_et_al_2024_plot_summary.csv"           
## [18] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_allometric_eq.csv"    
## [19] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plant_plot_detail.csv"
## [20] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plant.csv"            
## [21] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plot_summary.csv"     
## [22] "data/primary_studies/Radabaugh_et_al_2018/derivative/radabaugh_et_al_2018_plot_summary.csv"     
## [23] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_allometric_eq.csv"    
## [24] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_plant.csv"            
## [25] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_plot_summary.csv"     
## [26] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plant_plot_detail.csv"      
## [27] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plant.csv"                  
## [28] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plot_summary.csv"           
## [29] "data/primary_studies/Trettin_et_al_2020/derivative/trettin_et_al_2020_study_citation.csv"

Non .csv or .bib filetypes

##  [1] "data/primary_studies/Brown_et_al_2024/derivative/_readMe.txt"          
##  [2] "data/primary_studies/Darienzo_and_Peterson_1990/derivative/_readMe.rtf"
##  [3] "data/primary_studies/Dontis_et_al_2020/derivative/_readMe.txt"         
##  [4] "data/primary_studies/Everhart_et_al_2020/derivative/_readMe.txt"       
##  [5] "data/primary_studies/Gillen_et_al_2018/derivative/_readMe.txt"         
##  [6] "data/primary_studies/Langston_et_al_2022/derivative/_readMe.txt"       
##  [7] "data/primary_studies/Messerschmidt_et_al_2020/derivative/_readMe.txt"  
##  [8] "data/primary_studies/Morgan_et_al_2024/derivative/_readMe.rtf"         
##  [9] "data/primary_studies/Radabaugh_et_al_2017/derivative/_readMe.txt"      
## [10] "data/primary_studies/Radabaugh_et_al_2018/derivative/_readMe.txt"      
## [11] "data/primary_studies/Radabaugh_et_al_2021/derivative/_readMe.txt"      
## [12] "data/primary_studies/Radabaugh_et_al_2023/derivative/_readMe.txt"      
## [13] "data/primary_studies/Simard_et_al_2019/derivative/_readMe.rtf"         
## [14] "data/primary_studies/Smith_and_Kirwan_2021/derivative/_readMe.txt"     
## [15] "data/primary_studies/Stevens_et_al_2024/derivative/_readMe.txt"        
## [16] "data/primary_studies/Vinent_and_Kirwan_2017/derivative/_readMe.txt"

Warnings Encountered

## 1 identical warnings:
## There was 1 warning in `mutate()`.
## ℹ In argument: `across(everything(), as.numeric)`.
## Caused by warning:
## ! NAs introduced by coercion